Name: Yoonia vestfoldensis R-9477
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 13673

Type strain:

Species: Yoonia vestfoldensis

Strain Designation: R-9477

Culture col. no.: DSM 16212, LMG 22003, JCM 21637, CIP 108321, IAM 15182, NBRC 102487

Strain history: CIP <- 2004, S. Van Trappen, Ghent Univ., Ghent, Belgium <- J. Mergaert, Ghent Univ., Ghent, Belgium: strain R-9477

NCBI tax ID(s): 1122181 (strain), 245188 (species)

SI-ID 23227

LMG 22003, CIP 108321, DSM 16212, NBRC 102487, IAM 15182, JCM 21637

Special Collections

Section

When using BacDive for research please cite our paper

Yoonia vestfoldensis R-9477 is an aerobe, psychrophilic, Gram-negative bacterium that was isolated from microbial mat.

Gram-negative
rod-shaped
aerobe
psychrophilic
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Pseudomonadota*
	Class	*Alphaproteobacteria*
	Order	*Rhodobacterales*
	Family	*Roseobacteraceae*
	Genus	*Yoonia*
	Species	**Yoonia vestfoldensis**
	Full Scientific Name (LPSN)	Yoonia vestfoldensis (Van Trappen et al. 2004) Wirth and Whitman 2018

Synonym

Loktanella vestfoldensis

Information on morphological and physiological properties Morphology

[Ref.: #30155]	Gram stain	negative
[Ref.: #123829]	Gram stain	negative
[Ref.: #125438]	Gram stain	negative Confidence in %98.5
[Ref.: #125439]	Gram stain	negative Confidence in %98

[Ref.: #30155]	Cell length	3.5 µm

[Ref.: #30155]	Cell width	1 µm

[Ref.: #30155]	Cell shape	rod-shaped
[Ref.: #123829]	Cell shape	rod-shaped

[Ref.: #30155]	Motility	no
[Ref.: #123829]	Motility	no

[Ref.: #6328]

Incubation period

3-7 days

[Ref.: #30155]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #6328]

Culture medium

BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)

[Ref.: #6328]

Culture medium growth

[Ref.: #6328]

Culture medium link

Medium recipe at MediaDive

[Ref.: #6328]

Culture medium composition

expand / minimize

[Ref.: #37380]

Culture medium

Marine agar (MA)

[Ref.: #37380]

Culture medium growth

[Ref.: #37380]

Culture medium composition

expand / minimize

[Ref.: #123829]

Culture medium

CIP Medium 13

[Ref.: #123829]

Culture medium growth

[Ref.: #123829]

Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #6328]		growth	20 °C
[Ref.: #30155]		growth	5.0-37 °C
[Ref.: #30155]		optimum	25 °C
[Ref.: #37380]		growth	25 °C
[Ref.: #67770]		growth	25 °C
[Ref.: #123829]		growth	15-30 °C
[Ref.: #123829]	no	growth	5 °C
[Ref.: #123829]	no	growth	37 °C
[Ref.: #123829]	no	growth	41 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #30155]	Oxygen tolerance	aerobe
[Ref.: #125439]	Oxygen tolerance	obligate aerobe Confidence in %97.3

[Ref.: #30155]	Ability of spore formation	no
[Ref.: #125438]	Ability of spore formation	no Confidence in %92.63
[Ref.: #125439]	Ability of spore formation	no Confidence in %95.4

	Salt	Tested relation		Salt conc.
[Ref.: #30155]	NaCl		growth	0.0-10	%
[Ref.: #30155]	NaCl		optimum	5	%
[Ref.: #123829]	NaCl	no	growth	0	%
[Ref.: #123829]	NaCl	no	growth	2	%
[Ref.: #123829]	NaCl	no	growth	4	%
[Ref.: #123829]	NaCl	no	growth	6	%
[Ref.: #123829]	NaCl	no	growth	8	%
[Ref.: #123829]	NaCl	no	growth	10	%

[Ref.: #30155]

Observation

aggregates in chains

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68369]	adipate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	arginine ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #123829]	citrate ChEBI	-	carbon source
[Ref.: #68369]	D-glucose ChEBI	-	fermentation	* from API 20NE
[Ref.: #68369]	D-mannitol ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	decanoate ChEBI	-	assimilation	* from API 20NE
[Ref.: #30155]	esculin ChEBI	+	hydrolysis
[Ref.: #123829]	esculin ChEBI	+	hydrolysis
[Ref.: #68369]	esculin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	gelatin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	gluconate ChEBI	-	assimilation	* from API 20NE
[Ref.: #123829]	glucose ChEBI	-	degradation
[Ref.: #68369]	L-arabinose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	malate ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	maltose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	N-acetylglucosamine ChEBI	-	assimilation	* from API 20NE
[Ref.: #123829]	nitrate ChEBI	-	reduction
[Ref.: #68369]	nitrate ChEBI	-	reduction	* from API 20NE
[Ref.: #123829]	nitrite ChEBI	-	reduction
[Ref.: #123829]	sodium thiosulfate ChEBI	-	builds gas from
[Ref.: #68369]	tryptophan ChEBI	-	energy source	* from API 20NE
[Ref.: #30155]	tween 80 ChEBI	+	carbon source
[Ref.: #68369]	urea ChEBI	-	hydrolysis	* from API 20NE
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #123829]		indole ChEBI	no
[Ref.: #68369]		indole ChEBI	no	* from API 20NE

	Metabolite	Voges-Proskauer-test	Methylred-test	Indole test
[Ref.: #123829]	acetoin ChEBI	-
[Ref.: #123829]	glucose ChEBI		-
[Ref.: #68369]	indole ChEBI			-	* from API 20NE

	Enzyme	Enzyme activity	EC number
[Ref.: #30155]	acid phosphatase	+	3.1.3.2
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #123829]	alcohol dehydrogenase	-	1.1.1.1
[Ref.: #30155]	alkaline phosphatase	+	3.1.3.1
[Ref.: #68382]	alkaline phosphatase	+	3.1.3.1	* from API zym
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	+	3.2.1.20	* from API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #123829]	amylase	-
[Ref.: #68369]	arginine dihydrolase	-	3.5.3.6	* from API 20NE
[Ref.: #123829]	beta-galactosidase	+	3.2.1.23
[Ref.: #68382]	beta-galactosidase	+	3.2.1.23	* from API zym
[Ref.: #68382]	beta-glucosidase	-	3.2.1.21	* from API zym, API 20NE
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #123829]	caseinase	-	3.4.21.50
[Ref.: #6328]	catalase	+	1.11.1.6
[Ref.: #30155]	catalase	+	1.11.1.6
[Ref.: #123829]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #30155]	cytochrome oxidase	+	1.9.3.1
[Ref.: #6328]	cytochrome-c oxidase	+	1.9.3.1
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #123829]	gamma-glutamyltransferase	+	2.3.2.2
[Ref.: #123829]	gelatinase	-
[Ref.: #68369]	gelatinase	-		* from API 20NE
[Ref.: #123829]	lecithinase	-
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #123829]	lipase	-
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #123829]	lysine decarboxylase	-	4.1.1.18
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #123829]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #123829]	oxidase	+
[Ref.: #123829]	phenylalanine ammonia-lyase	-	4.3.1.24
[Ref.: #123829]	protease	-
[Ref.: #68382]	trypsin	+	3.4.21.4	* from API zym
[Ref.: #123829]	tryptophan deaminase	-
[Ref.: #123829]	tween esterase	+
[Ref.: #30155]	urease	+	3.5.1.5
[Ref.: #123829]	urease	+	3.5.1.5
[Ref.: #68369]	urease	-	3.5.1.5	* from API 20NE
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® 20NE:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Reduction of nitratesNO3	Indole productionTRP	Fermentation of D-glucoseGLU_ Ferm	Arginine dihydrolaseADH (Arg)	Urease/urea hydrolysisURE	Esculin hydrolysis/beta-GlucosidaseESC	Gelatinase/gelatin hydrolysisGEL	beta-GalactosidasePNPG	Assimilation of D-glucoseGLU_ Assim	Assimilation of L-arabinoseARA	Assimilation of D-mannoseMNE	Assimilation of D-mannitolMAN	Assimilation of N-acetyl-glucosamineNAG	Assimilation of maltoseMAL	Assimilation of gluconateGNT	Assimilation of capric acidCAP	Assimilation adipic acidADI	Assimilation of malic acidMLT	Assimilation of citric acidCIT	Assimilation of phenyl-acetic acidPAC	Cytochrome oxidaseOX
[Ref.: #6328]	26430	-	-	-	-	-	-	-	+	+/-	-	+/-	+	-	+	-	-	-	+	-	-	not determinedn.d.

API® zym:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #123829]	11086	-	+	+	+	-	+	-	-	+	-	+	+	-	+	-	+	-	-	-	-

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	gluconeogenesis	100	8 of 8
[Ref.: #66794]	C4 and CAM-carbon fixation	100	8 of 8
[Ref.: #66794]	cyanate degradation	100	3 of 3
[Ref.: #66794]	formaldehyde oxidation	100	3 of 3
[Ref.: #66794]	glycine betaine biosynthesis	100	5 of 5
[Ref.: #66794]	palmitate biosynthesis	100	22 of 22
[Ref.: #66794]	adipate degradation	100	2 of 2
[Ref.: #66794]	octane oxidation	100	3 of 3
[Ref.: #66794]	Entner Doudoroff pathway	100	10 of 10
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	denitrification	100	2 of 2
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	starch degradation	100	10 of 10
[Ref.: #66794]	valine metabolism	100	9 of 9
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	vitamin B1 metabolism	100	13 of 13
[Ref.: #66794]	ceramide biosynthesis	100	1 of 1
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	L-lactaldehyde degradation	100	3 of 3
[Ref.: #66794]	photosynthesis	92.86	13 of 14
[Ref.: #66794]	phenylalanine metabolism	92.31	12 of 13
[Ref.: #66794]	threonine metabolism	90	9 of 10
[Ref.: #66794]	myo-inositol biosynthesis	90	9 of 10
[Ref.: #66794]	serine metabolism	88.89	8 of 9
[Ref.: #66794]	molybdenum cofactor biosynthesis	88.89	8 of 9
[Ref.: #66794]	lipid A biosynthesis	88.89	8 of 9
[Ref.: #66794]	NAD metabolism	88.89	16 of 18
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	vitamin B12 metabolism	88.24	30 of 34
[Ref.: #66794]	isoleucine metabolism	87.5	7 of 8
[Ref.: #66794]	reductive acetyl coenzyme A pathway	85.71	6 of 7
[Ref.: #66794]	tetrahydrofolate metabolism	85.71	12 of 14
[Ref.: #66794]	purine metabolism	85.11	80 of 94
[Ref.: #66794]	leucine metabolism	84.62	11 of 13
[Ref.: #66794]	pyrimidine metabolism	82.22	37 of 45
[Ref.: #66794]	proline metabolism	81.82	9 of 11
[Ref.: #66794]	degradation of sugar alcohols	81.25	13 of 16
[Ref.: #66794]	phenylacetate degradation (aerobic)	80	4 of 5
[Ref.: #66794]	creatinine degradation	80	4 of 5
[Ref.: #66794]	metabolism of amino sugars and derivatives	80	4 of 5
[Ref.: #66794]	ethylmalonyl-CoA pathway	80	4 of 5
[Ref.: #66794]	methylglyoxal degradation	80	4 of 5
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	arginine metabolism	79.17	19 of 24
[Ref.: #66794]	glutathione metabolism	78.57	11 of 14
[Ref.: #66794]	citric acid cycle	78.57	11 of 14
[Ref.: #66794]	allantoin degradation	77.78	7 of 9
[Ref.: #66794]	CO2 fixation in Crenarchaeota	77.78	7 of 9
[Ref.: #66794]	alanine metabolism	75.86	22 of 29
[Ref.: #66794]	dTDPLrhamnose biosynthesis	75	6 of 8
[Ref.: #66794]	biotin biosynthesis	75	3 of 4
[Ref.: #66794]	butanoate fermentation	75	3 of 4
[Ref.: #66794]	cyclohexanol degradation	75	3 of 4
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	lactate fermentation	75	3 of 4
[Ref.: #66794]	CMP-KDO biosynthesis	75	3 of 4
[Ref.: #66794]	sulfopterin metabolism	75	3 of 4
[Ref.: #66794]	non-pathway related	73.68	28 of 38
[Ref.: #66794]	vitamin B6 metabolism	72.73	8 of 11
[Ref.: #66794]	ubiquinone biosynthesis	71.43	5 of 7
[Ref.: #66794]	heme metabolism	71.43	10 of 14
[Ref.: #66794]	cardiolipin biosynthesis	71.43	5 of 7
[Ref.: #66794]	sulfate reduction	69.23	9 of 13
[Ref.: #66794]	tryptophan metabolism	68.42	26 of 38
[Ref.: #66794]	degradation of sugar acids	68	17 of 25
[Ref.: #66794]	glutamate and glutamine metabolism	67.86	19 of 28
[Ref.: #66794]	lipid metabolism	67.74	21 of 31
[Ref.: #66794]	glycolate and glyoxylate degradation	66.67	4 of 6
[Ref.: #66794]	d-mannose degradation	66.67	6 of 9
[Ref.: #66794]	aspartate and asparagine metabolism	66.67	6 of 9
[Ref.: #66794]	methane metabolism	66.67	2 of 3
[Ref.: #66794]	acetyl CoA biosynthesis	66.67	2 of 3
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	lysine metabolism	66.67	28 of 42
[Ref.: #66794]	oxidative phosphorylation	65.93	60 of 91
[Ref.: #66794]	isoprenoid biosynthesis	65.38	17 of 26
[Ref.: #66794]	glycolysis	64.71	11 of 17
[Ref.: #66794]	tyrosine metabolism	64.29	9 of 14
[Ref.: #66794]	metabolism of disaccharids	63.64	7 of 11
[Ref.: #66794]	pentose phosphate pathway	63.64	7 of 11
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
[Ref.: #66794]	ketogluconate metabolism	62.5	5 of 8
[Ref.: #66794]	urea cycle	61.54	8 of 13
[Ref.: #66794]	methionine metabolism	61.54	16 of 26
[Ref.: #66794]	degradation of pentoses	60.71	17 of 28
[Ref.: #66794]	flavin biosynthesis	60	9 of 15
[Ref.: #66794]	hydrogen production	60	3 of 5
[Ref.: #66794]	glycogen metabolism	60	3 of 5
[Ref.: #66794]	propionate fermentation	60	6 of 10
[Ref.: #66794]	propanol degradation	57.14	4 of 7
[Ref.: #66794]	nitrate assimilation	55.56	5 of 9
[Ref.: #66794]	cysteine metabolism	55.56	10 of 18
[Ref.: #66794]	histidine metabolism	55.17	16 of 29
[Ref.: #66794]	3-phenylpropionate degradation	53.33	8 of 15
[Ref.: #66794]	polyamine pathway	52.17	12 of 23
[Ref.: #66794]	kanosamine biosynthesis II	50	1 of 2
[Ref.: #66794]	4-hydroxyphenylacetate degradation	50	5 of 10
[Ref.: #66794]	aminopropanol phosphate biosynthesis	50	1 of 2
[Ref.: #66794]	pantothenate biosynthesis	50	3 of 6
[Ref.: #66794]	glycine metabolism	50	5 of 10
[Ref.: #66794]	selenocysteine biosynthesis	50	3 of 6
[Ref.: #66794]	chlorophyll metabolism	50	9 of 18
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	acetate fermentation	50	2 of 4
[Ref.: #66794]	phenylmercury acetate degradation	50	1 of 2
[Ref.: #66794]	toluene degradation	50	2 of 4
[Ref.: #66794]	d-xylose degradation	45.45	5 of 11
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	41.67	5 of 12
[Ref.: #66794]	cellulose degradation	40	2 of 5
[Ref.: #66794]	gallate degradation	40	2 of 5
[Ref.: #66794]	phenol degradation	40	8 of 20
[Ref.: #66794]	vitamin K metabolism	40	2 of 5
[Ref.: #66794]	factor 420 biosynthesis	40	2 of 5
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	coenzyme M biosynthesis	40	4 of 10
[Ref.: #66794]	lipoate biosynthesis	40	2 of 5
[Ref.: #66794]	degradation of hexoses	38.89	7 of 18
[Ref.: #66794]	androgen and estrogen metabolism	37.5	6 of 16
[Ref.: #66794]	carnitine metabolism	37.5	3 of 8
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
[Ref.: #66794]	sphingosine metabolism	33.33	2 of 6
[Ref.: #66794]	enterobactin biosynthesis	33.33	1 of 3
[Ref.: #66794]	4-hydroxymandelate degradation	33.33	3 of 9
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	30.77	4 of 13
[Ref.: #66794]	bile acid biosynthesis, neutral pathway	29.41	5 of 17
[Ref.: #66794]	arachidonic acid metabolism	27.78	5 of 18
[Ref.: #66794]	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
[Ref.: #66794]	ascorbate metabolism	27.27	6 of 22
[Ref.: #66794]	alginate biosynthesis	25	1 of 4
[Ref.: #66794]	methanogenesis from CO2	25	3 of 12
[Ref.: #66794]	carotenoid biosynthesis	22.73	5 of 22
		Only first 10 entries are displayed. Click here to see all.

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #6328]	Sample type/isolated from	microbial mat
[Ref.: #6328]	Geographic location (country and/or sea, region)	Lake Ace, Vestfold Hills
[Ref.: #6328]	Continent	Australia and Oceania

[Ref.: #67770]	Sample type/isolated from	Microbial mat from Ace Lake in the Vestfold Hills
[Ref.: #67770]	Country	Antarctica
[Ref.: #67770]	Country ISO 3 Code	ATA
[Ref.: #67770]	Continent	Antarctica

[Ref.: #123829]	Sample type/isolated from	Microbial material
[Ref.: #123829]	Geographic location (country and/or sea, region)	Ace lake, Vestfold hills
[Ref.: #123829]	Country	Antarctica
[Ref.: #123829]	Country ISO 3 Code	ATA
[Ref.: #123829]	Continent	Antarctica
[Ref.: #123829]	Isolation date	1999
* marker position based on {}

Isolation sources categories

#Environmental

#Microbial community

#Microbial mat

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AJ582226 (>99% sequence identity) for Yoonia vestfoldensis subclade from Microbeatlas

Aquatic Samples	18624
Soil Samples	1689
Animal Samples	2367
Plant Samples	169
Total Samples	22849

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #6328]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #123829]	Biosafety level	1	Risk group (French classification)

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #6328]	Loktanella vestfoldensis 16S rRNA gene, type strain LMG 22003T	AJ582226	1449	GenBank ENA	245188 tax ID
[Ref.: #20218]	Loktanella vestfoldensis strain LMG22003 16S ribosomal RNA gene, partial sequence	DQ915611	1306	GenBank ENA	245188 tax ID	*
[Ref.: #20218]	Loktanella vestfoldensis gene for 16S rRNA, partial sequence, strain: NBRC 102487	AB681826	1388	GenBank ENA	245188 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Yoonia vestfoldensis DSM 16212	GCA_000382265	scaffold	GenBank ENA	1122181 tax ID
[Ref.: #66792]	Loktanella vestfoldensis DSM 16212	1122181.3	wgs	PATRIC	1122181 tax ID	*
[Ref.: #66792]	Loktanella vestfoldensis DSM 16212	2521172635	draft	JGI IMG/M	1122181 tax ID	*

[Ref.: #30155]	GC-content	62.6 mol%
[Ref.: #67770]	GC-content	62.1 mol%	high performance liquid chromatography (HPLC)

Data predicted using genome information as a basis Genome-based predictions

	Model	Trait	Prediction	Confidence in %	In training data
	Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Loktanella vestfoldensis DSM 16212 PATRIC: 1122181.3
[Ref.: #125438]	gram-positive	gram-positiveⓘ	no	98.5	yes
[Ref.: #125438]	anaerobic	anaerobicⓘ	no	92.992	yes
[Ref.: #125438]	spore-forming	spore-formingⓘ	no	92.63	yes
[Ref.: #125438]	aerobic	aerobicⓘ	yes	82.371	no
[Ref.: #125438]	thermophile	thermophilicⓘ	no	97.742	yes
[Ref.: #125438]	motile2+	flagellatedⓘ	yes	63.247	no

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Yoonia vestfoldensis DSM 16212 NCBI: GCA_000382265
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	obligate aerobe	97.3
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	negative	98
[Ref.: #125439]	BacteriaNet	motilityⓘ	yes	63.9
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	no	95.4

Availability in culture collections External links

[Ref.: #6328]

Culture collection no.

DSM 16212, LMG 22003, JCM 21637, CIP 108321, IAM 15182, NBRC 102487

[Ref.: #82856]

SI-ID 23227

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Loktanella salsilacus gen. nov., sp. nov., Loktanella fryxellensis sp. nov. and Loktanella vestfoldensis sp. nov., new members of the Rhodobacter group, isolated from microbial mats in Antarctic lakes.	Van Trappen S, Mergaert J, Swings J	Int J Syst Evol Microbiol	10.1099/ijs.0.03006-0	2004	*

References

#6328

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 16212

#20215

Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.: List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ. IJSEM ( DOI 10.1099/ijsem.0.004332 )

#20218

Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )

#30155

Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #26506 (see below)

#37380 ; Curators of the CIP;

#66792

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#66794

Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#68369

Automatically annotated from API 20NE .

#68382

Automatically annotated from API zym .

#69479

João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.: MicrobeAtlas 1.0 beta .

#82856

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID23227.1 )

#123829 Collection of Institut Pasteur ; Curators of the CIP; CIP 108321

#125438

Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )

#125439

Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .

#26506

IJSEM 1263 2004 ( DOI 10.1099/ijs.0.03006-0 , PubMed 15280301 )

* These data were automatically processed and therefore are not curated

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Loktanella vestfoldensis DSM 16212

Yoonia vestfoldensis DSM 16212

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